An in vitrobiofilm model system maintaining a highly reproducible species and metabolic diversity approaching that of the human oral microbiome

Table 3 Diversity and count estimates of 16S genes in pyrosequencing libraries after sequence trimming

Sample	Number of raw 16S rRNA fragment reads	Number of OTUs after pre-cluster analyses^b	Shannon entropy	Shannon evenness
Biofilm batch 1	6011	132	3.7436	0.7620
Biofilm batch 2 well 1^a	5731	107	3.6971	0.7960
Biofilm batch 2 well 2^a	8538	158	4.1868	0.8200
Biofilm batch 3 well 1	4835	154	4.1622	0.8284
Biofilm batch 3 well 2	5166	146	4.1082	0.8289
Biofilm batch 3 well 3	4778	148	4.2334	0.8683
Saliva 1	6956	208	4.7209	0.8544
Saliva 2	6885	243	4.7209	0.8544
Saliva 3	3799	179	4.5234	0.8828

Biofilm batches 1, 2 and 3 correspond to replicate biofilm samples grown at different time points. The biofilm batch-2 library was generated from stable isotope probing experiments (see Methods). ^aWells 1, 2 and 3 correspond to replicate technical samples collected from different sample wells. ^bNumbers of operational taxonomical units (OTUs) after precluster-analyses using the SILVA reference alignment and the MOTHUR software.

ISSN: 2049-2618